mirror of
https://github.com/MillironX/nf-core_modules.git
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49b18b1639
* add stub section * add stub for bcftools norm * add stub to more modules * fix expansionhunter tests * revert changes -picard * Update stub to write version no.s to a file * add picard * revert picard again * add stubs to more modules * fix bwamem2 * add bcftools view * add stubs * fix svdb query * review suggestions
47 lines
1.3 KiB
Text
47 lines
1.3 KiB
Text
process UNTAR {
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tag "$archive"
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label 'process_low'
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conda (params.enable_conda ? "conda-forge::tar=1.32" : null)
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container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
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'https://containers.biocontainers.pro/s3/SingImgsRepo/biocontainers/v1.2.0_cv1/biocontainers_v1.2.0_cv1.img' :
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'biocontainers/biocontainers:v1.2.0_cv1' }"
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input:
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tuple val(meta), path(archive)
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output:
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tuple val(meta), path("$untar"), emit: untar
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path "versions.yml" , emit: versions
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when:
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task.ext.when == null || task.ext.when
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script:
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def args = task.ext.args ?: ''
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def args2 = task.ext.args2 ?: ''
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untar = archive.toString() - '.tar.gz'
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"""
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tar \\
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-xzvf \\
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$args \\
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$archive \\
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$args2 \\
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cat <<-END_VERSIONS > versions.yml
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"${task.process}":
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untar: \$(echo \$(tar --version 2>&1) | sed 's/^.*(GNU tar) //; s/ Copyright.*\$//')
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END_VERSIONS
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"""
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stub:
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untar = archive.toString() - '.tar.gz'
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"""
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touch $untar
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cat <<-END_VERSIONS > versions.yml
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"${task.process}":
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untar: \$(echo \$(tar --version 2>&1) | sed 's/^.*(GNU tar) //; s/ Copyright.*\$//')
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END_VERSIONS
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"""
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}
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